The Evolution of Life Modes in Stictidaceae, with Three Novel Taxa

Ostropales sensu lato is a large group comprising both lichenized and non-lichenized fungi, with several lineages expressing optional lichenization where individuals of the same fungal species exhibit either saprotrophic or lichenized lifestyles depending on the substrate (bark or wood). Greatly variable phenotypic characteristics and large-scale phylogenies have led to frequent changes in the taxonomic circumscription of this order. Ostropales sensu lato is currently split into Graphidales, Gyalectales, Odontotrematales, Ostropales sensu stricto, and Thelenellales. Ostropales sensu stricto is now confined to the family Stictidaceae, which includes a large number of species that are poorly known, since they usually have small fruiting bodies that are rarely collected, and thus, their taxonomy remains partly unresolved. Here, we introduce a new genus Ostropomyces to accommodate a novel lineage related to Ostropa, which is composed of two new species, as well as a new species of Sphaeropezia, S. shangrilaensis. Maximum likelihood and Bayesian inference analyses of mitochondrial small subunit spacers (mtSSU), large subunit nuclear rDNA (LSU), and internal transcribed spacers (ITS) sequence data, together with phenotypic data documented by detailed morphological and anatomical analyses, support the taxonomic affinity of the new taxa in Stictidaceae. Ancestral character state analysis did not resolve the ancestral nutritional status of Stictidaceae with confidence using Bayes traits, but a saprotrophic ancestor was indicated as most likely in a Bayesian binary Markov Chain Monte Carlo sampling (MCMC) approach. Frequent switching in nutritional modes between lineages suggests that lifestyle transition played an important role in the evolution of this family.

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Morphology, genetic characterization and molecular phylogeny of pinworm Skrjabinema longicaudatum n. sp. (Oxyurida: Oxyuridae) from the endangered Tibetan antelope Pantholops hodgsonii (Abel) (Artiodactyla: Bovidae)

Parasites & Vectors ◽

10.1186/s13071-020-04430-6 ◽

2020 ◽

Vol 13 (1) ◽

Author(s):

Yi-Fan Cao ◽

Hui-Xia Chen ◽

Yang Li ◽

Dang-Wei Zhou ◽

Shi-Long Chen ◽

...

Keyword(s):

New Species ◽

Ribosomal Dna ◽

Dna Sequences ◽

Sequence Data ◽

Phylogenetic Analyses ◽

Large Subunit ◽

Small Subunit ◽

Sister Relationship ◽

Tibetan Antelope ◽

A New Species

Abstract Background The Tibetan antelope Pantholops hodgsonii (Abel) (Artiodactyla: Bovidae) is an endangered species of mammal endemic to the Qinghai-Tibetan Plateau. Parasites and parasitic diseases are considered to be important threats in the conservation of the Tibetan antelope. However, our present knowledge of the composition of the parasites of the Tibetan antelope remains limited. Methods Large numbers of nematode parasites were collected from a dead Tibetan antelope. The morphology of these nematode specimens was observed using light and scanning electron microscopy. The nuclear and mitochondrial DNA sequences, i.e. small subunit ribosomal DNA (18S), large subunit ribosomal DNA (28S), internal transcribed spacer (ITS) and cytochrome c oxidase subunit 1 (cox1), were amplified and sequenced for molecular identification. Moreover, phylogenetic analyses were performed using maximum likelihood (ML) inference based on 28S and 18S + 28S + cox1 sequence data, respectively, in order to clarify the systematic status of these nematodes. Results Integrated morphological and genetic evidence reveals these nematode specimens to be a new species of pinworm Skrjabinema longicaudatum (Oxyurida: Oxyuridae). There was no intraspecific nucleotide variation between different individuals of S. longicaudatum n. sp. in the partial 18S, 28S, ITS and cox1 sequences. However, a high level of nucleotide divergence was revealed between the new species and its congeners in 28S (8.36%) and ITS (20.3–23.7%) regions, respectively. Molecular phylogenetic results suggest that the genus Skrjabinema should belong to the subfamily Oxyurinae (Oxyuroidea: Oxyuridae), instead of the subfamily Syphaciidae or Skrjabinemiinae in the traditional classification, as it formed a sister relationship to the genus Oxyuris. Conclusions A new species of pinworm Skrjabinema longicaudatum n. sp. (Oxyurida: Oxyuridae) is described. Skrjabinema longicaudatum n. sp. represents the first species of Oxyurida (pinworm) and the fourth nematode species reported from the Tibetan antelope. Our results contribute to the knowledge of the species diversity of parasites from the Tibetan antelope, and clarify the systematic position of the genus Skrjabinema.

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Nematodes from vernal pools in the Santa Rosa Plateau Ecological Reserve, California I. Hirschmanniella santarosae sp. n. (Nematoda: Pratylenchidae), a cryptic sibling species of H. pomponiensis Abdel-Rahman & Maggenti, 1987

Nematology ◽

10.1163/156854107781352052 ◽

2007 ◽

Vol 9 (3) ◽

pp. 405-429 ◽

Cited By ~ 19

Author(s):

Paul De Ley ◽

Melissa Yoder ◽

Manuel Mundo-Ocampo ◽

Irma Tandingan De Ley

Keyword(s):

New Species ◽

Sibling Species ◽

Sequence Data ◽

Large Subunit ◽

Small Subunit ◽

Sibling Relationship ◽

Gene Trees ◽

Species Status ◽

Ecological Reserve ◽

Tail Tip

AbstractHirschmanniella santarosae sp. n. is described from the largest vernal pool in the Santa Rosa Plateau Ecological Reserve, Murrieta, California, USA. The cryptic new species is morphologically very close to H. pomponiensis and H. gracilis as it can be distinguished from the former only by a more anterior excretory pore position and by more flattened as well as laterally expanded stylet knobs, whilst it differs from the latter in the greater distance from phasmid to tail tip and in the bursal alae ending near the phasmids rather than near the tail tip. Analysis of the rDNA small subunit (SSU) and D2D3 expansion segments of the large subunit (LSU) shows that H. santarosae sp. n. is genetically distinct, having respective sequence homology of 98.89% and 95.9% with H. pomponiensis for these loci. Congruence in SSU and D2D3 gene trees as well as unambiguous character autapomorphies further support the new species status of H. santarosae sp. n. and sibling relationship with H. pomponiensis. Although many more isolates and species will need to be studied before informative biogeographic analyses can be performed, the presently available sequence data suggest that some Hirschmanniella lineages have diversified independently on either side of the Atlantic.

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A Re-Examination of Generic Concepts of Baeomycetoid Lichens Based on Phylogenetic Analyses of Nuclear ssu and Lsu Ribosomal Dna

The Lichenologist ◽

10.1006/lich.1999.0230 ◽

1999 ◽

Vol 31 (5) ◽

pp. 409-418 ◽

Cited By ~ 10

Author(s):

Jamie L. Platt ◽

Joseph W. Spatafora

Keyword(s):

Ribosomal Dna ◽

Sequence Data ◽

Phylogenetic Analyses ◽

Large Subunit ◽

Small Subunit ◽

Lsu Rdna ◽

Character State ◽

Nucleotide Sequence Data ◽

Lichen Symbiosis ◽

Data Support

AbstractThe lichen symbiosis has evolved several times within the fungal kingdom, although the total number of lichenization events leading to extant taxa is still unclear. Two lichenized families, the Icmadophilaceae and Baeomycetaceae have been classified in the Helotiales. Because the Helotiales are predominantly nonlichenized, this suggests that these families represent independent evolutionary episodes of lichenization from the Lecanorales. As a first step towards understanding the evolution of the lichen symbiosis within this order, we tested recent hypotheses concerning the segregation of lichen genera between the two lichen families. Specifically, we used phylogenetic analyses of nucleotide sequence data from nuclear small-subunit and large-subunit ribosomal DNA to test the morphology-based hypotheses that Dibaeis is a distinct genus from Baeomyces and that Dibaeis is a member of the Icmadophilaceae rather than the Baeomycetaceae. Phylogenetic analyses of nuclear SSU rDNA and combined SSU and LSU rDNA data support the hypothesis that Dibaeis is more closely related to IcmadophUa than it is to Baeomyces. Therefore, these data support the resurrection of Dibaeis from its previous synonymy with Baeomyces based on the characters of ascocarp colour and ascus morphology. The recognition of two distinct genera is also consistent with character state distribution of unique lichen acids.

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Genetic characterization of members of the genus Contracaecum (Nematoda: Anisakidae) from fish-eating birds from west-central Florida, USA, with evidence of new species

Parasitology ◽

10.1017/s003118200700251x ◽

2007 ◽

Vol 134 (7) ◽

pp. 1041-1051 ◽

Cited By ~ 26

Author(s):

S. D'AMELIO ◽

N. B. BARROS ◽

S. INGROSSO ◽

D. A. FAUQUIER ◽

R. RUSSO ◽

...

Keyword(s):

New Species ◽

Sequence Data ◽

Rflp Analysis ◽

Distinct Group ◽

Small Subunit ◽

Internal Transcribed Spacers ◽

Nuclear Ribosomal Dna ◽

Central Florida ◽

Pcr Rflp ◽

Distinct Lineage

SUMMARYSpecimens of Contracaecum spp. from Phalacrocorax auritus and Pelecanus occidentalis from Florida were characterized by sequencing of the small subunit of the mitochondrial ribosomal RNA gene (rrnS) and by PCR-based RFLP analysis of the same gene and of the internal transcribed spacers (ITS) of nuclear ribosomal DNA. Analyses of the rrnS sequence data using the MP and UPGMA approaches yielded trees with similar topologies, delineating 3 main clusters. Specimens from Ph. auritus, morphologically assigned to C. rudolphii (s.l.), were part of the cluster comprising also the other 2 species of the C. rudolphii complex (A and B), but representing a genetically distinct group, potentially corresponding to a distinct lineage within the complex, provisionally named as C. rudolphii C. The second cluster comprised 5 individuals from P. occidentalis, which formed a genetically relatively homogeneous group. The rrnS data indicate that these specimens (indicated as Contracaecum sp. 1) are clearly genetically different from the morphologically most closely related species, i.e. C. rudolphii (s.l.) and C. microcephalum, and could represent a new species. The third cluster comprised 7 specimens from P. occidentalis morphologically assigned to C. multipapillatum (s.l.). These were shown to be genetically homogeneous and related to but quite distinct from C. multipapillatum from Greece, although additional studies are needed to assess their status. PCR-RFLP based markers for the quick identification of these taxa are provided.

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Morphology, genetic characterization and molecular phylogeny of pinworm Skrjabinema longicaudatum sp. n. (Oxyurida: Oxyuridae) from the endangered Tibetan antelope Pantholops hodgsonii (Abel) (Artiodactyla: Bovidae)

10.21203/rs.3.rs-68446/v3 ◽

2020 ◽

Author(s):

Yi-Fan Cao ◽

Hui-Xia Chen ◽

Yang Li ◽

Dang-Wei Zhou ◽

Shi-Long Chen ◽

...

Keyword(s):

New Species ◽

Ribosomal Dna ◽

Dna Sequences ◽

Sequence Data ◽

Phylogenetic Analyses ◽

Large Subunit ◽

Small Subunit ◽

Sister Relationship ◽

Tibetan Antelope ◽

A New Species

Abstract Background: The Tibetan antelope Pantholops hodgsonii (Abel) (Artiodactyla: Bovidae) is an endangered species of mammal endemic to the Qinghai-Tibetan Plateau. Parasites and parasitic diseases are considered to be important threats in the conservation of the Tibetan antelope. However, our present knowledge of the composition of the parasites from the Tibetan antelope remains limited. Methods: Large numbers of nematode parasites were collected from a dead Tibetan antelope. The morphology of these nematode specimens was observed using light and scanning electron microscopy. The nuclear and mitochondrial DNA sequences [i.e. small subunit ribosomal DNA (18S), large subunit ribosomal DNA (28S), internal transcribed spacer (ITS) and cytochrome c oxidase subunit 1 (cox1)] were amplified and sequenced for molecular identification. Moreover, phylogenetic analyses were performed using maximum likelihood (ML) inference based on 28S and 18S + 28S + cox1 sequence data, respectively, in order to clarify the systematic status of these nematodes.Results: Integrated morphological and genetic evidence reveals these nematode specimens to be a new species of pinworm Skrjabinema longicaudatum (Oxyurida: Oxyuridae). There was no intraspecific nucleotide variation between different individuals of S. longicaudatum sp. n. in the partial 18S, 28S, ITS and cox1 sequences. However, a high level of nucleotide divergence was revealed between the new species and its congeners in 28S (8.36%) and ITS (20.3–23.7%) regions, respectively. Molecular phylogenetic results suggest that the genus Skrjabinema should belong to the subfamily Oxyurinae (Oxyuroidea: Oxyuridae), instead of the subfamily Syphaciidae or Skrjabinemiinae in the traditional classification, as it formed a sister relationship to the genus Oxyuris. Conclusions: A new species of pinworm Skrjabinema longicaudatum sp. n. (Oxyurida: Oxyuridae) is described. Skrjabinema longicaudatum sp. n. represents the first species of Oxyurida (pinworm) and the fourth nematode species reported from the Tibetan antelope. Our results contribute to the knowledge of the species diversity of parasites from the Tibetan antelope, and clarify the systematic position of the genus Skrjabinema.

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Morphology, genetic characterization and molecular phylogeny of pinworm Skrjabinema longicaudatum sp. n. (Oxyurida: Oxyuridae) from the endangered Tibetan antelope Pantholops hodgsonii (Abel) (Artiodactyla: Bovidae)

10.21203/rs.3.rs-68446/v2 ◽

2020 ◽

Author(s):

Yi-Fan Cao ◽

Hui-Xia Chen ◽

Yang Li ◽

Dang-Wei Zhou ◽

Shi-Long Chen ◽

...

Keyword(s):

New Species ◽

Ribosomal Dna ◽

Dna Sequences ◽

Sequence Data ◽

Phylogenetic Analyses ◽

Large Subunit ◽

Small Subunit ◽

Sister Relationship ◽

Tibetan Antelope ◽

A New Species

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Morphology, genetic characterization and molecular phylogeny of pinworm Skrjabinema longicaudatum sp. n. (Oxyurida: Oxyuridae) from the endangered Tibetan antelope Pantholops hodgsonii (Abel) (Artiodactyla: Bovidae)

10.21203/rs.3.rs-68446/v4 ◽

2020 ◽

Author(s):

Yi-Fan Cao ◽

Hui-Xia Chen ◽

Yang Li ◽

Dang-Wei Zhou ◽

Shi-Long Chen ◽

...

Keyword(s):

New Species ◽

Ribosomal Dna ◽

Dna Sequences ◽

Sequence Data ◽

Phylogenetic Analyses ◽

Large Subunit ◽

Small Subunit ◽

Sister Relationship ◽

Tibetan Antelope ◽

A New Species

Abstract Background: The Tibetan antelope Pantholops hodgsonii (Abel) (Artiodactyla: Bovidae) is an endangered species of mammal endemic to the Qinghai-Tibetan Plateau. Parasites and parasitic diseases are considered to be important threats in the conservation of the Tibetan antelope. However, our present knowledge of the composition of the parasites of the Tibetan antelope remains limited. Methods: Large numbers of nematode parasites were collected from a dead Tibetan antelope. The morphology of these nematode specimens was observed using light and scanning electron microscopy. The nuclear and mitochondrial DNA sequences, i.e. small subunit ribosomal DNA (18S), large subunit ribosomal DNA (28S), internal transcribed spacer (ITS) and cytochrome c oxidase subunit 1 (cox1), were amplified and sequenced for molecular identification. Moreover, phylogenetic analyses were performed using maximum likelihood (ML) inference based on 28S and 18S + 28S + cox1 sequence data, respectively, in order to clarify the systematic status of these nematodes.Results: Integrated morphological and genetic evidence reveals these nematode specimens to be a new species of pinworm Skrjabinema longicaudatum (Oxyurida: Oxyuridae). There was no intraspecific nucleotide variation between different individuals of S. longicaudatum n. sp. in the partial 18S, 28S, ITS and cox1 sequences. However, a high level of nucleotide divergence was revealed between the new species and its congeners in 28S (8.36%) and ITS (20.3–23.7%) regions, respectively. Molecular phylogenetic results suggest that the genus Skrjabinema should belong to the subfamily Oxyurinae (Oxyuroidea: Oxyuridae), instead of the subfamily Syphaciidae or Skrjabinemiinae in the traditional classification, as it formed a sister relationship to the genus Oxyuris. Conclusions: A new species of pinworm Skrjabinema longicaudatum n. sp. (Oxyurida: Oxyuridae) is described. Skrjabinema longicaudatum n. sp. represents the first species of Oxyurida (pinworm) and the fourth nematode species reported from the Tibetan antelope. Our results contribute to the knowledge of the species diversity of parasites from the Tibetan antelope, and clarify the systematic position of the genus Skrjabinema.

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Eight new species of Siphoderina Manter, 1934 (Digenea, Cryptogonimidae) infecting Lutjanidae and Haemulidae (Perciformes) off Australia

Acta Parasitologica ◽

10.2478/s11686-008-0053-4 ◽

2008 ◽

Vol 53 (4) ◽

Cited By ~ 28

Author(s):

Terrence Miller ◽

Thomas Cribb

Keyword(s):

New Species ◽

Sequence Data ◽

Large Subunit ◽

Strong Support ◽

Internal Transcribed Spacers ◽

Nuclear Ribosomal Dna ◽

Evolutionary Divergence ◽

New Combinations ◽

Closely Related Species ◽

History Of

AbstractWe report nine species, eight of which are new, of cryptogonimids belonging to Siphoderina Manter, 1934 from the intestine and pyloric caeca of five species of Lutjanidae (Lutjanus adetii, L. argentimaculatus, L. carponotatus, L. fulviflamma and L. russelli) and one species of Haemulidae (Plectorhinchus gibbosus) recovered from Heron and Lizard Islands off the Great Barrier Reef, Moreton Bay and Ningaloo Reef in Western Australia. We also report the metacercariae of two species from an atherinid fish, Atherinomorus capricornensis, from near Heron Island. Morphological analysis of the species reported here was augmented by DNA sequence analyses utilizing data from the internal transcribed spacers (ITS) 1 and 2, large subunit (LSU) and 5.8S nuclear ribosomal DNA to explore the integrity of the species and their biogeographic distributions. The analysis found strong support for the integrity of Siphoderina and found that it is the sister-taxon to Beluesca Miller et Cribb, 2007. Sequencing included multiple replicates and no intraspecific variation was observed between any of the taxa over the rDNA regions examined. Sequence data from the ITS and LSU regions were analysed with that of species of Beluesca, Caulanus Miller et Cribb, 2007, Chelediadema Miller et Cribb, 2007, Latuterus Miller et Cribb, 2007, Neometadena Hafeezullah et Siddiqi, 1970 and Retrovarium Miller et Cribb, 2007 which all also infect lutjanids or haemulids. Some closely related species of Siphoderina infect only distantly related fishes among the haemulids and lutjanids whereas others form clusters in association with clusters of closely related lutjanids. This pattern suggests a history of some co-evolutionary divergence together with significant host switching. Pseudallacanthochasmus Velasquez, 1961 is considered a synonym of Siphoderina and the new combinations S. grandispinus (Velasquez, 1961) n. comb. and S. magnivesiculum (Gaevskaya et Aljoshkina, 1985) n. comb. are proposed. As a result of the new species described here and these new combinations, Siphoderina now contains 43 species, making it by far the largest genus of the Cryptogonimidae.

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Theileria parva ribosomal internal transcribed spacer sequences exhibit extensive polymorphism and mosaic evolution: application to the characterization of parasites from cattle and buffalo

Parasitology ◽

10.1017/s0031182099004321 ◽

1999 ◽

Vol 118 (6) ◽

pp. 541-551 ◽

Cited By ~ 38

Author(s):

N. E. COLLINS ◽

B. A. ALLSOPP

Keyword(s):

Genetic Recombination ◽

Large Subunit ◽

Small Subunit ◽

Internal Transcribed Spacers ◽

Rrna Genes ◽

Gene Pools ◽

Theileria Parva ◽

Causative Agents ◽

Internal Transcribed Spacer Sequences

We sequenced the rRNA genes and internal transcribed spacers (ITS) of several Theileria parva isolates in an attempt to distinguish between the causative agents of East coast fever and Corridor disease. The small subunit (SSU) and large subunit (LSU) rRNA genes from a cloned T. p. lawrencei parasite were sequenced; the former was identical to that of T. p. parva Muguga, and there were minor heterogeneities in the latter. The 5·8S gene sequences of 11 T. parva isolates were identical, but major differences were found in the ITS. Six characterization oligonucleotides were designed to hybridize within the variable ITS1 region; 93·5% of T. p. parva isolates examined were detected by probe TPP1 and 81·8% of T. p. lawrencei isolates were detected by TPL2 and/or TPL3a. There was no absolute distinction between T. p. parva and T. p. lawrencei and the former hybridized with fewer of the probes than did the latter. It therefore seems that a relatively homogenous subpopulation of T. parva has been selected in cattle from a more diverse gene pool in buffalo. The ITSs of both T. p. parva and T. p. lawrencei contained different combinations of identifiable sequence segments, resulting in a mosaic of segments in any one isolate, suggesting that the two populations undergo genetic recombination and that their gene pools are not completely separate.

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Spegazzinia camelliae sp. nov. (Didymosphaeriaceae, Pleosprales), a new endophytic fungus from northern Thailand

Phytotaxa ◽

10.11646/phytotaxa.483.2.4 ◽

2021 ◽

Vol 483 (2) ◽

pp. 117-128

Author(s):

NAKARIN SUWANNARACH ◽

JATURONG KUMLA ◽

SAISAMORN LUMYONG

Keyword(s):

Phylogenetic Analyses ◽

Large Subunit ◽

Elongation Factor ◽

Small Subunit ◽

Internal Transcribed Spacers ◽

Nuclear Ribosomal Dna ◽

Full Description ◽

Translation Elongation ◽

Spine Length ◽

Elongation Factor 1 Alpha

A new endophytic ascomycete, described herein as Spegazzinia camelliae, was isolated from leaves of Camellia sinensis var. assamica collected from Nan Province, Thailand. This species is characterized by basauxic conidiophores and dark brown to blackish brown α and β conidia. It can be distinguished from previously described Spegazzinia species by the spine length of the α conidia and the size of the β conidia. Multi-gene phylogenetic analyses of the small subunit (SSU), large subunit (LSU) and internal transcribed spacers (ITS) of the nuclear ribosomal DNA (rDNA) and the translation elongation factor 1-alpha (tef1) genes also support S. camelliae is a distinct new species within Spegazzinia. A full description, color photographs, illustrations and a phylogenetic tree showing the position of S. camelliae are provided.

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